SNAP 2016

Introduction

SNAP, which stands for Scalable Nucleotide Alignment Program is a fast and accurate read aligner for high-throughput sequencing data. This SNAP version is not to be confused with the other version of SNAP, namely the Semi-HMM-based Nucleic Acid Parser which you can find here.

Installed Version

At the moment, SNAP is still in its beta phase which is why the installed version is called like this:

SNAP/1.0beta.23-foss-2017b

Using SNAP

SNAP is installed at the environment hpc-env/6.4 which is to be loaded at first in order to load the SNAP module:

module load hpc-env/6.4
module load SNAP

Now you can proceed according to the scheme snap-aligner <command>

Documentation

For further information please consult the developer's website where you can find a quick start guide as well as a user manual. Please note that the commands displayed there may not be transferable one-to-one. In such cases, replace the 'snap' command with 'snap-aligner'.